Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0008572

Physical Location & Seq

Genomic Coordinates Forward (+)

18024092 .. 18029835

Gene Structure 5744 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000032704

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1239 bp

ATGATGTCATTTTTCAAAAGCAGCAGCAGCAGCCGCTCACTATCAAGAACCACAACCGGCGACACTGGCGGCAGCGTGACTAGGAGAACGTCATCCTATGGTTCGAAGAAATCATCAAGCATGAGTAGTACCAGTGGTGATAAAGCTGCACATACAGGAACCCAGAAGAAGCACAAGTACGCATATATTCCTGATAACTTCACATCCATTGAACAGGTTACAGATGCATTGAGAAAAGAAGGACTAGAGTCTTCTAATCTCATTGTTGGAATAGACTTCACTAAAAGCAATGAATGGACAGGCAAGAAGTCATTCAACAATCGAAGCCTACATGCCATTGGCGATGTACCTAATCCATACGAAAAAGCTATCTCTATAATCGGAAAAACTTTGTCTCCCTTTGATGAAGACAACTTAATTCCTTGTTTTGGCTTTGGTGATGCTACCACTCATGATCAAGAGGTGTTCAGCTTTCACACTGATCATTCACCCTGTCATGGTTTCGAAGAAGTCTTGACCTGCTACAAAAGAATAGTTCCTACTTTACGATTATCAGGGCCAACTTCTTATGGACCTGTAATTGAGGCTGCAATGGACATTGTTGAGAAAAGTGCAGGTCAATACCATGTGTTAGTTATCATTGCAGATGGCCAGGTTACAAGAAGCATCAATACCAACGACAAGGAATTGAGTCCACAAGAGGAGAAGACAATCAAAGCAATTGCAGATGCAAGTTCCTATCCACTCTCCATTATTCTTATTGGAGTCGGCGATGGTCCCTGGGAAGACATGAGAAAATTTGATGACAAGCTCCCTGCACGAGAATTCGATAATTTTCAGTTTGTTAATTTTACGGACATTATGGCTAAACAAACATCTGCCTCTGAGAAAGAGGCTGCTTTTGCTCTTGCTGCCCTCATGGAAGTCCCACTCCAGTATAAGGCAACTATCGAATTTGGTATTCTTGGACGTAAAACAGGGAAAGGGAAGAGAACAGTTCCACGCCCTCCACCAGTTCCATACGTTCATCGTCCACCTCCGACTCATGAACCAAGTGCAATCTCAGCACCCGTAGGGAATGACCGCGATGAATTGGTCTGCCCGATCTGCCTGACTAATGCAAAGGACCTGGCGTTTGGCTGTGGACACATGGCCTGCAGAGACTGTGGAGCAAGATTATCCAACTGTCACATATGCCGCCAGCCAATCCGCAGCCGTCTCAGGGTTTACTCTGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005886 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009308 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009690 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009850 GO:0009867 GO:0009987 GO:0010033 GO:0010817 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023052 GO:0032446 GO:0032870 GO:0034754 GO:0036211 GO:0042221 GO:0042445 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0048583 GO:0048585 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065007 GO:0065008 GO:0070647 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071704 GO:0071944 GO:0080134 GO:0080148 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:1901701 GO:2000070

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Copine zf-C3HC4_3

Protein Analysis

413

Amino Acids

45.13

Weight (kDa)

7.98

Isoelectric Point (pI)

45.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	109 - 322	9.8e-73	Copine
zf-C3HC4_3	PF13920	364 - 405	1.4e-08	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008572)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79380
fragaria_vesca	FvH4_3g13940 FvH4_3g13940 FvH4_3g13940 FvH4_3g13940
malus_domestica	MD05G1239600.v1.1 MD10G1217900.v1.1
prunus_persica	Prupe.4G126200_v2.0.a1 Prupe.4G126200_v2.0.a1
pyrus_communis	pycom05g21590 pycom10g18370
rosa_chinensis	RchiOBHm_Chr5g0023161
rosa_laevigata	RLG00000032704
rosa_multiflora	Rmu_sc0007300.1_g000015
rosa_roxburghii	Rroxscaffold_1G00056180
rosa_rugosa	Rorug05G0077700 Rorug05G0077700 Rorug05G0077700
rosa_samantha	Rh5AG163800 Rh5BG163100 Rh5CG178100 Rh5DG164500
rosa_wichuraiana	Rw5G014780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	527, 605
AccBSI	CCGCTC	1 cut(s)	36
AccII	CGCG	1 cut(s)	1086
AciI	CCGC	5 cut(s)	34, 69, 1084, 1198, 1210
AcoI	YGGCCR	1 cut(s)	649
AcsI	RAATTY	3 cut(s)	797, 824, 953
AfaI	GTAC	3 cut(s)	130, 179, 348
AfiI	CCNNNNNNNGG	4 cut(s)	428, 497, 940, 1222
AgsI	TTSAA	3 cut(s)	16, 212, 316
AjnI	CCWGG	3 cut(s)	651, 779, 1128
AluBI	AGCT	4 cut(s)	146, 368, 471, 811
AluI	AGCT	4 cut(s)	146, 368, 471, 811
Alw26I	GTCTC	3 cut(s)	399, 1155, 1223
AlwNI	CAGNNNCTG	1 cut(s)	1164
AoxI	GGCC	3 cut(s)	557, 649, 1152
ApoI	RAATTY	3 cut(s)	797, 824, 953
ArsI	GACNNNNNNTTYG	2 cut(s)	1118, 1150
Asp700I	GAANNNNTTC	1 cut(s)	311
AspS9I	GGNCC	4 cut(s)	557, 572, 776, 1126
AsuHPI	GGTGA	3 cut(s)	149, 449, 480
AsuII	TTCGAA	2 cut(s)	104, 504
AvaII	GGWCC	3 cut(s)	572, 776, 1126
BalI	TGGCCA	1 cut(s)	651
BarI	GAAGNNNNNNTAC	4 cut(s)	161, 193, 655, 687
BauI	CACGAG	1 cut(s)	819
BbsI	GAAGAC	4 cut(s)	243, 414, 713, 792
BccI	CCATC	2 cut(s)	641, 767
BceAI	ACGGC	1 cut(s)	1200
BciT130I	CCWGG	3 cut(s)	653, 781, 1130
BclI	TGATCA	2 cut(s)	454, 481
BcoDI	GTCTC	3 cut(s)	399, 1155, 1223
BfaI	CTAG	2 cut(s)	81, 245
BfmI	CTRYAG	1 cut(s)	1156
BfuAI	ACCTGC	2 cut(s)	527, 605
Bme1390I	CCNGG	3 cut(s)	653, 781, 1130
Bme18I	GGWCC	3 cut(s)	572, 776, 1126
BmgT120I	GGNCC	4 cut(s)	557, 572, 776, 1126
BmiI	GGNNCC	2 cut(s)	160, 778
BmrFI	CCNGG	3 cut(s)	653, 781, 1130
BmsI	GCATC	4 cut(s)	214, 430, 675, 718
BoxI	GACNNNNGTC	1 cut(s)	247
BpiI	GAAGAC	4 cut(s)	243, 414, 713, 792
BpmI	CTGGAG	1 cut(s)	917
Bpu14I	TTCGAA	2 cut(s)	104, 504
BsaJI	CCNNGG	2 cut(s)	779, 780
BsaXI	ACNNNNNCTCC	2 cut(s)	379, 409
Bsc4I	CCNNNNNNNGG	4 cut(s)	428, 497, 940, 1222
Bse118I	RCCGGY	1 cut(s)	56
Bse1I	ACTGG	4 cut(s)	70, 132, 934, 1013
Bse3DI	GCAATG	3 cut(s)	295, 597, 639
BseBI	CCWGG	3 cut(s)	653, 781, 1130
BseDI	CCNNGG	2 cut(s)	779, 780
BseGI	GGATG	2 cut(s)	92, 203
BseLI	CCNNNNNNNGG	4 cut(s)	428, 497, 940, 1222
BseMI	GCAATG	3 cut(s)	295, 597, 639
BseMII	CTCAG	3 cut(s)	876, 1077, 1234
BseNI	ACTGG	4 cut(s)	70, 132, 934, 1013
BseRI	GAGGAG	1 cut(s)	716
BsgI	GTGCAG	3 cut(s)	132, 633, 801
Bsh1236I	CGCG	1 cut(s)	1086
BshFI	GGCC	3 cut(s)	559, 651, 1154
BsiSI	CCGG	1 cut(s)	57
BslFI	GGGAC	2 cut(s)	762, 911
BslI	CCNNNNNNNGG	4 cut(s)	428, 497, 940, 1222
BsmAI	GTCTC	3 cut(s)	399, 1155, 1223
BsmBI	CGTCTC	1 cut(s)	1223
BsmFI	GGGAC	2 cut(s)	762, 911
BsnI	GGCC	3 cut(s)	559, 651, 1154
Bsp119I	TTCGAA	2 cut(s)	104, 504
Bsp143I	GATC	3 cut(s)	454, 481, 1104
BspACI	CCGC	5 cut(s)	34, 69, 1084, 1198, 1210
BspANI	GGCC	3 cut(s)	559, 651, 1154
BspCNI	CTCAG	3 cut(s)	877, 1076, 1233
BspFNI	CGCG	1 cut(s)	1086
BspHI	TCATGA	2 cut(s)	451, 1045
BspLI	GGNNCC	2 cut(s)	160, 778
BspMAI	CTGCAG	1 cut(s)	1160
BspMI	ACCTGC	2 cut(s)	527, 605
BspT104I	TTCGAA	2 cut(s)	104, 504
BsrBI	CCGCTC	1 cut(s)	36
BsrDI	GCAATG	3 cut(s)	295, 597, 639
BsrFI	RCCGGY	1 cut(s)	56
BsrI	ACTGG	4 cut(s)	70, 132, 934, 1013
BssAI	RCCGGY	1 cut(s)	56
BssECI	CCNNGG	2 cut(s)	779, 780
BssMI	GATC	3 cut(s)	454, 481, 1104
BssSI	CACGAG	1 cut(s)	819
Bst2BI	CACGAG	1 cut(s)	819
Bst2UI	CCWGG	3 cut(s)	653, 781, 1130
Bst4CI	ACNGT	3 cut(s)	997, 1166, 1187
Bst6I	CTCTTC	1 cut(s)	983
BstBI	TTCGAA	2 cut(s)	104, 504
BstC8I	GCNNGC	2 cut(s)	1156, 1202
BstDEI	CTNAG	3 cut(s)	885, 1063, 1220
BstF5I	GGATG	2 cut(s)	92, 203
BstFNI	CGCG	1 cut(s)	1086
BstKTI	GATC	3 cut(s)	457, 484, 1107
BstMAI	GTCTC	3 cut(s)	399, 1155, 1223
BstMBI	GATC	3 cut(s)	454, 481, 1104
BstMWI	GCNNNNNNNGC	8 cut(s)	27, 30, 33, 66, 902, 911, 1064, 1107
BstNI	CCWGG	3 cut(s)	653, 781, 1130
BstNSI	RCATGY	1 cut(s)	335
BstPAI	GACNNNNGTC	1 cut(s)	247
BstSCI	CCNGG	3 cut(s)	651, 779, 1128
BstSFI	CTRYAG	1 cut(s)	1156
BstUI	CGCG	1 cut(s)	1086
BstV2I	GAAGAC	4 cut(s)	243, 414, 713, 792
BsuRI	GGCC	3 cut(s)	559, 651, 1154
BtgZI	GCGATG	3 cut(s)	357, 786, 1101
BtsCI	GGATG	2 cut(s)	92, 203
BtsIMutI	CAGTG	3 cut(s)	63, 139, 477
BveI	ACCTGC	2 cut(s)	527, 605
Cac8I	GCNNGC	2 cut(s)	1156, 1202
CaiI	CAGNNNCTG	1 cut(s)	1164
CciI	TCATGA	2 cut(s)	451, 1045
Cfr10I	RCCGGY	1 cut(s)	56
Cfr13I	GGNCC	4 cut(s)	557, 572, 776, 1126
Csp6I	GTAC	3 cut(s)	129, 178, 347
CviAII	CATG	9 cut(s)	121, 332, 452, 497, 626, 790, 919, 1046, 1150
CviQI	GTAC	3 cut(s)	129, 178, 347
DdeI	CTNAG	3 cut(s)	885, 1063, 1220
DpnI	GATC	3 cut(s)	456, 483, 1106
DpnII	GATC	3 cut(s)	454, 481, 1104
EaeI	YGGCCR	1 cut(s)	649
Eam1104I	CTCTTC	1 cut(s)	983
EarI	CTCTTC	1 cut(s)	983
Eco47I	GGWCC	3 cut(s)	572, 776, 1126
EcoO109I	RGGNCCY	1 cut(s)	1126
EcoRI	GAATTC	1 cut(s)	824
EcoRII	CCWGG	3 cut(s)	651, 779, 1128
EcoT22I	ATGCAT	1 cut(s)	229
Esp3I	CGTCTC	1 cut(s)	1223
FaeI	CATG	9 cut(s)	124, 335, 455, 500, 629, 793, 922, 1049, 1153
FaqI	GGGAC	2 cut(s)	762, 911
FatI	CATG	9 cut(s)	120, 331, 451, 496, 625, 789, 918, 1045, 1149
FauNDI	CATATG	1 cut(s)	1193
FbaI	TGATCA	2 cut(s)	454, 481
FokI	GGATG	2 cut(s)	79, 190
FspBI	CTAG	2 cut(s)	81, 245
GsuI	CTGGAG	1 cut(s)	917
HaeIII	GGCC	3 cut(s)	559, 651, 1154
HapII	CCGG	1 cut(s)	57
Hin1II	CATG	9 cut(s)	124, 335, 455, 500, 629, 793, 922, 1049, 1153
HinfI	GANTC	4 cut(s)	248, 691, 765, 1042
HpaII	CCGG	1 cut(s)	57
HphI	GGTGA	3 cut(s)	149, 449, 480
Hpy166II	GTNNAC	4 cut(s)	695, 1034, 1145, 1228
Hpy188I	TCNGA	3 cut(s)	383, 886, 1041
Hpy188III	TCNNGA	7 cut(s)	45, 191, 452, 458, 514, 1046, 1233
Hpy8I	GTNNAC	4 cut(s)	695, 1034, 1145, 1228
HpyAV	CCTTC	1 cut(s)	233
HpyCH4III	ACNGT	3 cut(s)	997, 1166, 1187
HpyCH4IV	ACGT	3 cut(s)	89, 970, 1023
HpyF10VI	GCNNNNNNNGC	8 cut(s)	27, 30, 33, 66, 902, 911, 1064, 1107
HpyF3I	CTNAG	3 cut(s)	885, 1063, 1220
HpySE526I	ACGT	3 cut(s)	89, 970, 1023
Hsp92II	CATG	9 cut(s)	124, 335, 455, 500, 629, 793, 922, 1049, 1153
Ksp22I	TGATCA	2 cut(s)	454, 481
Kzo9I	GATC	3 cut(s)	454, 481, 1104
LmnI	GCTCC	2 cut(s)	816, 1169
LweI	GCATC	4 cut(s)	214, 430, 675, 718
MaeI	CTAG	2 cut(s)	81, 245
MaeII	ACGT	3 cut(s)	89, 970, 1023
MaeIII	GTNAC	4 cut(s)	76, 217, 655, 1187
MalI	GATC	3 cut(s)	456, 483, 1106
MbiI	CCGCTC	1 cut(s)	36
MboI	GATC	3 cut(s)	454, 481, 1104
MboII	GAAGA	8 cut(s)	118, 178, 243, 419, 518, 718, 797, 1000
MfeI	CAATTG	1 cut(s)	720
MlsI	TGGCCA	1 cut(s)	651
MluNI	TGGCCA	1 cut(s)	651
MlyI	GAGTC	4 cut(s)	257, 700, 774, 1036
MmeI	TCCRAC	3 cut(s)	247, 1064, 1206
MnlI	CCTC	8 cut(s)	454, 577, 694, 886, 892, 926, 1017, 1047
Mox20I	TGGCCA	1 cut(s)	651
Mph1103I	ATGCAT	1 cut(s)	229
MroXI	GAANNNNTTC	1 cut(s)	311
MscI	TGGCCA	1 cut(s)	651
MseI	TTAA	2 cut(s)	416, 846
Msp20I	TGGCCA	1 cut(s)	651
MspI	CCGG	1 cut(s)	57
MspR9I	CCNGG	3 cut(s)	653, 781, 1130
MunI	CAATTG	1 cut(s)	720
MvaI	CCWGG	3 cut(s)	653, 781, 1130
MvnI	CGCG	1 cut(s)	1086
MwoI	GCNNNNNNNGC	8 cut(s)	27, 30, 33, 66, 902, 911, 1064, 1107
NdeI	CATATG	1 cut(s)	1193
NdeII	GATC	3 cut(s)	454, 481, 1104
NlaIII	CATG	9 cut(s)	124, 335, 455, 500, 629, 793, 922, 1049, 1153
NlaIV	GGNNCC	2 cut(s)	160, 778
NmuCI	GTSAC	2 cut(s)	76, 1187
NsiI	ATGCAT	1 cut(s)	229
NspI	RCATGY	1 cut(s)	335
NspV	TTCGAA	2 cut(s)	104, 504
PagI	TCATGA	2 cut(s)	451, 1045
PasI	CCCWGGG	1 cut(s)	780
PdmI	GAANNNNTTC	1 cut(s)	311
PleI	GAGTC	4 cut(s)	256, 699, 773, 1036
PpsI	GAGTC	4 cut(s)	256, 699, 773, 1036
PpuMI	RGGWCCY	1 cut(s)	1126
PshAI	GACNNNNGTC	1 cut(s)	247
Psp5II	RGGWCCY	1 cut(s)	1126
Psp6I	CCWGG	3 cut(s)	651, 779, 1128
PspGI	CCWGG	3 cut(s)	651, 779, 1128
PspN4I	GGNNCC	2 cut(s)	160, 778
PspPI	GGNCC	4 cut(s)	557, 572, 776, 1126
PspPPI	RGGWCCY	1 cut(s)	1126
PstI	CTGCAG	1 cut(s)	1160
PstNI	CAGNNNCTG	1 cut(s)	1164
RsaI	GTAC	3 cut(s)	130, 179, 348
RsaNI	GTAC	3 cut(s)	129, 178, 347
SaqAI	TTAA	2 cut(s)	416, 846
Sau3AI	GATC	3 cut(s)	454, 481, 1104
Sau96I	GGNCC	4 cut(s)	557, 572, 776, 1126
SchI	GAGTC	4 cut(s)	257, 700, 774, 1036
ScrFI	CCNGG	3 cut(s)	653, 781, 1130
SfaNI	GCATC	4 cut(s)	214, 430, 675, 718
SfcI	CTRYAG	1 cut(s)	1156
SfuI	TTCGAA	2 cut(s)	104, 504
SinI	GGWCC	3 cut(s)	572, 776, 1126
SsiI	CCGC	5 cut(s)	34, 69, 1084, 1198, 1210
SspMI	CTAG	2 cut(s)	81, 245
StyD4I	CCNGG	3 cut(s)	651, 779, 1128
TaaI	ACNGT	3 cut(s)	997, 1166, 1187
TaiI	ACGT	3 cut(s)	92, 973, 1026
TaqI	TCGA	5 cut(s)	104, 322, 504, 828, 951
TauI	GCSGC	3 cut(s)	36, 72, 1200
Tru1I	TTAA	2 cut(s)	416, 846
Tru9I	TTAA	2 cut(s)	416, 846
TscAI	CASTG	3 cut(s)	70, 139, 484
TseFI	GTSAC	2 cut(s)	76, 1187
Tsp45I	GTSAC	2 cut(s)	76, 1187
TspDTI	ATGAA	5 cut(s)	306, 420, 1016, 1062, 1104
TspGWI	ACGGA	1 cut(s)	869
TspRI	CASTG	3 cut(s)	70, 139, 484
VpaK11BI	GGWCC	3 cut(s)	572, 776, 1126
XapI	RAATTY	3 cut(s)	797, 824, 953
XceI	RCATGY	1 cut(s)	335
XmnI	GAANNNNTTC	1 cut(s)	311
XspI	CTAG	2 cut(s)	81, 245
Zsp2I	ATGCAT	1 cut(s)	229

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.